Mercurial > repos > galaxyp > maxquant

diff test-data/06/config.yml @ 10:f522c08e900c draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 63e45d43f403514ab0ceafaf441d761866f1eb7e"
author galaxyp
date Fri, 12 Mar 2021 08:41:06 +0000
parents
children 0839f84def5e
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/06/config.yml	Fri Mar 12 08:41:06 2021 +0000
@@ -0,0 +1,59 @@
+
+            fastaFiles: [/tmp/tmp0wswhy4o/files/e/e/e/dataset_eee05aed-87d2-4635-87b0-dd7930cc43dc.dat]
+            parseRules:
+              identifierParseRule: '>([^\s]*)'
+              descriptionParseRule: '>(.*)'
+            minUniquePeptides: 0
+            minPepLen: 7
+            maxPeptideMass: 4600
+            calcPeakProperties: False
+            writeMzTab: True
+            separateLfq: False
+            lfqStabilizeLargeRatios: True
+            lfqRequireMsms: True
+            advancedSiteIntensities: True
+            matchBetweenRuns: False
+            includeContaminants: False
+            minPeptideLengthForUnspecificSearch: 7
+            maxPeptideLengthForUnspecificSearch: 24
+            decoyMode: randomize
+            peptideFdr: 0.5
+            proteinFdr: 0.4
+            quantMode: 0
+            restrictProteinQuantification: True
+            restrictMods: [Pro5,Pro6]
+            useCounterparts: True
+            paramGroups:
+              - files: ['BSA_min_23.mzXML']
+                maxMissedCleavages: 2
+                fixedModifications: []
+                variableModifications: [Oxidation (M)]
+                enzymes: [Trypsin/P]
+                enzymeMode: 0
+                lcmsRunType: 'Reporter ion MS3'
+                reporterMassTolerance: 0.003
+                reporterPif: 0
+                reporterFraction: 0
+                reporterBasePeakRatio: 0
+                filterPif: False
+                isobaricLabels:
+                      - ['TMT2plex-Lys126','TMT2plex-Nter126',0.0,0.0,6.7,3.0,True]
+                      - ['TMT2plex-Lys127','TMT2plex-Nter127',0.0,0.0,0.0,0.0,True]
+              - files: ['BSA_min_22.mzxml']
+                maxMissedCleavages: 2
+                fixedModifications: []
+                variableModifications: []
+                enzymes: []
+                enzymeMode: 0
+                lcmsRunType: 'Reporter ion MS3'
+                reporterMassTolerance: 0.003
+                reporterPif: 0.8
+                reporterFraction: 0
+                reporterBasePeakRatio: 0
+                filterPif: True
+                isobaricLabels:
+                    - [iTRAQ4plex-Lys114,iTRAQ4plex-Nter114,0,0,0,0,False]
+                    - [iTRAQ4plex-Lys115,iTRAQ4plex-Nter115,0,0,0,0,False]
+                    - [iTRAQ4plex-Lys116,iTRAQ4plex-Nter116,0,0,0,0,False]
+                    - [iTRAQ4plex-Lys117,iTRAQ4plex-Nter117,0,0,0,0,False]
+        
\ No newline at end of file